PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00028718001

Common Name

GSBRNA2T00028718001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

C3H

Protein Properties

Length: 555aa MW: 61953.9 Da PI: 7.5647

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00028718001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	24.8	3.7e-08	259	279	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C+ f++ G C+ Gd+C +aHg GSBRNA2T00028718001 259 PCPEFRK-GSCPKGDSCEYAHG 279 8****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF48403	8.71E-13	35	161	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	4.5E-13	78	178	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50297	12.541	78	178	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	9.8E-4	78	108	IPR002110	Ankyrin repeat
Pfam	PF13637	6.6E-7	79	132	No hit	No description
CDD	cd00204	3.98E-12	80	177	No hit	No description
SMART	SM00248	52	114	146	IPR002110	Ankyrin repeat
PROSITE profile	PS50103	13.976	254	281	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.3E-5	254	280	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.1E-5	259	280	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-5	259	279	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.9E-4	286	318	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	67	289	312	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 555 aa Download sequence Send to blast
MCGSERNLCS SRTSYTEAEL MRAKEEQERV DATMPLLEYA ACDDLPSFKR QTEENSLDIN 60 EPGLWYCKRV GSKKMGFQER TPLMVAAMYG SIEVLTYIIS IGRSDVNRVS SDEEKVTALH 120 CAVSGCSVSI VQVIKILLDA SASPNFLDAN RNKPVDLLVQ ASRFIPNQTR KAVELLLNGI 180 ISSEEEEVMK SVVSKYPADA SLPDINEGVY GTDEFRMFSF KVKPCSRAYS HDWTECPFVH 240 PGENARRRDP RKYPYTCVPC PEFRKGSCPK GDSCEYAHGV FESWLHPAQY KTRLCKDETC 300 CARKVCFFAH RRDELRAVNA STGSAMVSPP MSPSSPSVTL SPRNGGLWQN RVNSLTPPPL 360 QLNGSRLKSN LSARDMDMEM ELRLRRGAYD SPSSVLQLQS PSRSHYPSSP VRQPPPHGFE 420 SSAAMAAAVM NARSSAFARR SLSFKPAPVA TSNVVSEWGS PNGKLEWGMQ REELNKMRRS 480 ASFGIHGNNN SYNNVSVPVR DYSDEPDVSW VNSLVKESEP ERAFGLSERV GNTFKLTSWE 540 EQMYIDHEKQ QIVA*

Sequence ? help Back to Top

Protein Sequence Length: 555 aa Download sequence Send to blast

MCGSERNLCS SRTSYTEAEL MRAKEEQERV DATMPLLEYA ACDDLPSFKR QTEENSLDIN  60
EPGLWYCKRV GSKKMGFQER TPLMVAAMYG SIEVLTYIIS IGRSDVNRVS SDEEKVTALH  120
CAVSGCSVSI VQVIKILLDA SASPNFLDAN RNKPVDLLVQ ASRFIPNQTR KAVELLLNGI  180
ISSEEEEVMK SVVSKYPADA SLPDINEGVY GTDEFRMFSF KVKPCSRAYS HDWTECPFVH  240
PGENARRRDP RKYPYTCVPC PEFRKGSCPK GDSCEYAHGV FESWLHPAQY KTRLCKDETC  300
CARKVCFFAH RRDELRAVNA STGSAMVSPP MSPSSPSVTL SPRNGGLWQN RVNSLTPPPL  360
QLNGSRLKSN LSARDMDMEM ELRLRRGAYD SPSSVLQLQS PSRSHYPSSP VRQPPPHGFE  420
SSAAMAAAVM NARSSAFARR SLSFKPAPVA TSNVVSEWGS PNGKLEWGMQ REELNKMRRS  480
ASFGIHGNNN SYNNVSVPVR DYSDEPDVSW VNSLVKESEP ERAFGLSERV GNTFKLTSWE  540
EQMYIDHEKQ QIVA*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.17360	0.0	root\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots and anthers. {ECO:0000269\|PubMed:17609218}.

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in salt stress response. May positively modulate plant tolerance to salt stress. {ECO:0000269\|PubMed:17609218}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00028718001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By salt stress. {ECO:0000269\|PubMed:17609218}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013621926.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 29-like
Refseq	XP_013640482.1	0.0	zinc finger CCCH domain-containing protein 29-like
Refseq	XP_013716870.1	0.0	zinc finger CCCH domain-containing protein 29-like
Refseq	XP_022554838.1	0.0	zinc finger CCCH domain-containing protein 29-like
Refseq	XP_022566463.1	0.0	zinc finger CCCH domain-containing protein 29-like
Swissprot	Q9XEE6	0.0	C3H29_ARATH; Zinc finger CCCH domain-containing protein 29
TrEMBL	A0A078GHS8	0.0	A0A078GHS8_BRANA; BnaC03g22460D protein
STRING	Bo3g034750.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM877	26	107

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40140.2	0.0	C3H family protein

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]